Reference:
H. Cheng, BH. Kim, and N. Grishin (2008). Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable datasets.
J. Mol. Biol. 377(4): 1265-1278
BH. Kim, H. Cheng, and N. Grishin (2009). HorA web server to infer homology between proteins using sequence and structural similarity.
Nucleic Acids Res. 37(Web Server issue):W532-8
Comments and suggestions to: grishin@chop.swmed.edu
Query: T515_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1thfd_ | Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1p2fa2 | Response regulator DrrB | CheY-like | Flavodoxin-like | α/β |
Query <-- 1.415 --> IntermediateDALI alignment (Z-score: 10.2 Raw score:987.30) query 1 mietpyylidkakltrnmeriahvreksGAKALLALK-----------------cfATWS 43 ::::::::: :::: d1thfd_ 1 --------------------------mlAKRIIACLDvkdgrvvkgsnfenlrdsgDPVE 34 query 44 VFDLMR-DYMDGTTSS-----------SLFEVRLGRERFGKETHAYSV-AYGDnEIDEVV 90 :::::: ::::::::: ::::::::::::::::::::: :::: :::::: d1thfd_ 35 LGKFYSeIGIDELVFLditasvekrktMLELVEKVAEQIDIPFTVGGGiHDFE-TASELI 93 query 91 S-HADKIIFNS-----ISQLERFADKAAgIARGLRLNPQ---------------rlgeWD 129 : ::::::::: :::::::::::: :::::::::: :: d1thfd_ 94 LrGADKVSINTaavenPSLITQIAQTFGsQAVVVAIDAKrvdgefmvftysgkkntgiLL 153 query 130 VPKVERVMD-RINGFMIHN--NCENKDFglfdrMLGEIEeRFGALIarVDWVSLGGGIHF 186 ::::::::: ::::::::: ::::::: :::::: :::::: :::::::::::: d1thfd_ 154 RDWVVEVEKrGAGEILLTSidRDGTKSG----yDTEMIR-FVRPLT--TLPIIASGGAGK 206 query 187 tgddypvDAFSARLRAFSdrygvqIYLEPGEASITksttlevtvldtlynknlaivdssi 246 ::::::::::: ::::::::::: d1thfd_ 207 -------MEHFLEAFLAG-----aDAALAASVFHF------------------------- 229 query 247 eahmldlliyretakvlpnegshsymicgksclagdvfgefrfaeelkvgdrisfqdaag 306 d1thfd_ 230 ------------------------------------------------------------ 230 query 307 ytmvkknwfngvkmpaiaireldgsvrtvreftyadyeqsls 348 d1thfd_ 230 ------------------reidvrelkeylkkhgvnvrlegl 253 FAST alignment (Normalized score: 5.37 Raw score:1594.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS--GAKALLALKCFA------------------ 40 ::::::: d1thfd_ 1 ----------------------------MLAKRIIAC-----LDVKDGRVVKGSNFENLR 27 query 41 ----TWSVFDLMRD-YMDGTTSS------------SLFEVRLGRERFGKETHAYSVAY-G 82 :::::::::: ::::::: :::::::::::::::::: :::: : d1thfd_ 28 DSGDPVELGKFYSEIGIDELVF-LDITASVEKRKTMLELVEKVAEQIDIPFTV-GGGIHD 85 query 83 DNEIDEVV-SHADKIIFNSISQLERFADK----AAGI---ARGLRLNPQRLGEW------ 128 :::::::: :::::::: :::::::::: :::: ::::::: d1thfd_ 86 FETASELILRGADKVSI--NTAAVENPSLITQIAQTFGSQAVVVAID-------AKRVDG 136 query 129 ----------------DVPKVERVMD-RINGFMIHN----NCENKDFGLFDRMLGE---I 164 :::::::::: ::::::: ::::: : d1thfd_ 137 EFMVFTYSGKKNTGILLRDWVVEVEKRGAGEILL--TSIDRDGTK-----------SGYD 183 query 165 EERFGALIARV-DWVSLGGGIHFTGDDYPVDA-FSARLRAFSDRYGVQIYLEPGEASITK 222 ::::::::::: ::::::::: :::::::::: ::: ::::::::: d1thfd_ 184 TEMIRFVRPLTTLPIIASGGA-----------GKMEHFLEAFL-AGA-DAALAASVF--- 227 query 223 STTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGD 282 d1thfd_ 228 ------------------------------------------------------------ 228 query 283 VFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYAD 342 d1thfd_ 228 ------------------------------------------------------------ 228 query 343 YEQSLS-------------------------- 348 d1thfd_ 228 ------HFREIDVRELKEYLKKHGVNVRLEGL 253 TMalign alignment (TM-score: 0.36 Raw score:125.07) query 1 -------------MIETPYYLID---------KAK-L-TRNMERIAHVREKSGAKALLAL 36 :::: ::: : :::::::::: :: : :::::: d1thfd_ 1 MLAKRIIACLDVK------DGRVVKGSNFENLRDSGDPVELGKFYSEI-GI-D-ELVFLD 51 query 37 --KC--FA-T-WSVFDLMR--D-YMDGTT--SSSLFEVRLGRERFGKETHAY-S-VAYGD 83 :: :: : :::::::: : :::::: ::::::::::::::::::::: : ::::: d1thfd_ 52 ITASVEKRKTMLELVEKVAEQIDIPFTVGGGIHDFETASELILRGADKVSINTAAVENPS 111 query 84 NEIDEVVSHADKIIFNSISQLERFADKAAGIARGLRLNPQ------RL-------G-EWD 129 :::::::::::: :::::::::: :: : ::: d1thfd_ 112 -LITQIAQTFGSQ-----------------AVVVAIDAKRVDGEFMVFTYSGKKNTGILL 153 query 130 VPKVERVMDR-I-NGFMIHNNCENKDFGLFDRMLGEIEERFGALIA-RVDWVSLGGGIHF 186 : :::::::: : :::::::::::: :::: : :::::::::: ::::::::: : : d1thfd_ 154 R-DWVVEVEKRGAGEILLTSIDRDG---TKSG-Y--DTEMIRFVRPLTTLPIIASG-G-A 204 query 187 TGDDYPVDAFSARLRAFSDRYGVQIYLEP--GEAS------------------------- 219 : :: ::::::: :::::::::: :: d1thfd_ 205 -----G--KM-EHFLEAF-LAGADAALAASV--FHFREIDVRELKEYLKKHGVNVRLEGL 253 query 220 ITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCL 279 d1thfd_ 254 ------------------------------------------------------------ 254 query 280 AGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFT 339 d1thfd_ 254 ------------------------------------------------------------ 254 query 340 YADYEQSLS 348 d1thfd_ 254 --------- 254 HHsearch alignment (Probability: 0.08 E-value:0.02) query 62 EVRLGRERFGKETHAYSVAYGD-NEIDEVVSHADKIIF------NSISQLERFADKAAGI 114 :::::::::::::::::::::: ::::::::::::::: :::::::::::::::: d1thfd_ 185 EMIRFVRPLTTLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFREIDVRELKEYLKKH 244 query 115 ARGLRLNP 122 :::::::: d1thfd_ 245 GVNVRLEG 252
Intermediate <-- 0.868 --> HitDALI alignment (Z-score: 3.9 Raw score:297.20) d1thfd_ 1 mlakriiacldvkdgrvvkgsnfenlrdsgdpvelgkfyseigidelvflditasvekrk 60 d1p2fa2 1 ------------------------------------------------------------ 1 d1thfd_ 61 tmlelvekvaeqidipftvgggihdfetaselilrgadkvsintaavenpslitqiaqtF 120 : d1p2fa2 1 -----------------------------------------------------------M 1 d1thfd_ 121 GSQavVVAID-----akrvdgefmvftysgkkntgILLRDWvVEVEkrgaGEILLTSIDr 175 ::: ::::: :::::: :::: ::::::::: d1p2fa2 2 MWK--IAVVDddknilkkvseklqqlgrvktfltgEDFLND-EEAF----HVVVLDVML- 53 d1thfd_ 176 dgtksgyDTEMIRFVRPLT-TLPIIASGGAGKMEHFLEAFLAGADAALAASVFhfreidv 234 :::::::::::: ::::::::::::::::::::::::::::::::: d1p2fa2 54 ---pdysGYEICRMIKETRpETWVILLTLLSDDESVLKGFEAGADDYVTKPFN------- 103 d1thfd_ 235 relkeylkkhgvnvrlegl 253 d1p2fa2 104 --peillarvkrflerekk 120 FAST alignment (Normalized score: 3.19 Raw score:556.70) d1thfd_ 1 MLAKRIIACLDVKDGRVVKGSNFENLRDSGDPVELGKFYSEIGIDELVFLDITASVEKRK 60 d1p2fa2 1 ------------------------------------------------------------ 1 d1thfd_ 61 TMLELVEKVAEQIDIPFTVG---------------------GGIHDFETASELILRGADK 99 ::::::: ::::::::::: ::::::: d1p2fa2 1 -------------MMWKIAVVDDDKNILKKVSEKLQQLGRVKTFLTGEDFLN-DEEAFHV 46 d1thfd_ 100 VSINTAAVE--------NPSLITQIAQTFGSQ-AVVVAIDAKRVDGEFMVFTYSGKKNTG 150 ::: ::::::::::: ::: :::::: d1p2fa2 47 VVL------DVMLPDYSGYEICRMIKET-RPETWVILLT--------------------- 78 d1thfd_ 151 IL---LRDWVVEVEKRGAGEILLTSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGKM 207 :::::::::::::::::: d1p2fa2 79 --LLSDDESVLKGFEAGADDYVT------------------------------------- 99 d1thfd_ 208 EHFLEAFLAGADAALAASVFHFREIDVRELKEYLKKHGVNVRLEGL-------------- 253 d1p2fa2 100 ----------------------------------------------KPFNPEILLARVKR 113 d1thfd_ 254 ------- 254 d1p2fa2 114 FLEREKK 120 TMalign alignment (TM-score: 0.28 Raw score:70.71) d1thfd_ 1 -MLAKRIIACLDVK--------------------DGRVVKGSNFENLRDSGDPVELGKFY 39 ::::::::: ::: ::::: :::::: d1p2fa2 1 M----MWKIAVVDDDKNILKKVSEKLQQLGRVKT---FLT--------GEDFL-NDEEAF 44 d1thfd_ 40 SEIGIDELVFLDITASVEKRKTMLELVEKVAEQI-DIPFTVGGGIHDFETASELILRGAD 98 : :::::: : ::: :::::::::::::: ::::::::::::::::::::::::: d1p2fa2 45 H-----VVVLDV--M-LPD-YSGYEICRMIKETRPETWVILLTLLSDDESVLKGFEAGAD 95 d1thfd_ 99 KVSINTAAVENPSLITQIAQTFGSQAVVVAIDAKRVDGEFMVFTYSGKKNTGILLRDWVV 158 :::::: ::: d1p2fa2 96 DYVTKP------------------------FNP--------------------------- 104 d1thfd_ 159 EVEKRGAGEILLTSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGKMEHFLEAFLAGA 218 :::: :: d1p2fa2 105 ---------EILL--------------------------AR------------------- 110 d1thfd_ 219 DA---ALAASVFHFREIDVRELKEYLKKHGVNV----RLEGL 253 :: : d1p2fa2 111 VKRFL---------------------------EREKK----- 120 HHsearch alignment (Probability: 0.63 E-value:0.00) d1thfd_ 168 ILLTSIDRDGTKSGYDTEMIRFVRPLT-TLPIIASGGAGKMEHFLEAFLAGADAALAASV 226 ::::::::::: ::::::::::::: :::::::::::::::::::::::::::: d1p2fa2 46 VVVLDVMLPDY---SGYEICRMIKETRPETWVILLTLLSDDESVLKGFEAGADDYV---- 98 d1thfd_ 227 FHFREIDVRELKEYLK 242 :::::::::::::: d1p2fa2 99 --TKPFNPEILLARVK 112